# When I run MD for a protein which contain 2 chains, I am getting high RMSD and it is drifting apart

**URL:** <https://gromacs.bioexcel.eu/t/when-i-run-md-for-a-protein-which-contain-2-chains-i-am-getting-high-rmsd-and-it-is-drifting-apart/10778>\
**Category:** User discussions\
**Tags:** mdrun\
**Created:** [December 11, 2024, 6:58am UTC](https://gromacs.bioexcel.eu/t/when-i-run-md-for-a-protein-which-contain-2-chains-i-am-getting-high-rmsd-and-it-is-drifting-apart/10778 "2024-12-11T06:58:40Z")\
**Posts on this page:** 1\
**Page:** 1

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**Author:** ![Madhavi](https://dub1.discourse-cdn.com/flex017/user_avatar/gromacs.bioexcel.eu/madhavi/32/4073_2.png) [@Madhavi](https://gromacs.bioexcel.eu/u/Madhavi)\
**Post date:** [December 11, 2024, 6:58am UTC](https://gromacs.bioexcel.eu/t/when-i-run-md-for-a-protein-which-contain-2-chains-i-am-getting-high-rmsd-and-it-is-drifting-apart/10778/1 "2024-12-11T06:58:40Z")

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Here post your question : When I run MD for a protein which contain 2 chains, I am getting high RMSD and it is drifting apart in analysis